package shared

import scala.collection.immutable.SeqMap

/**
 * Created by yz on 6/7/2020
 */
object VarTool {

  val junctionMap = SeqMap("junctionId" -> "JunctionID", "junctionLocation" -> "Junction location",
    "junctionType" -> "Junction type", "geneSymbol" -> "Gene symbol", "geneType" -> "Gene type",
    "transcriptId" -> "Transcript ID", "tumorMedian" -> "Tumor median", "ntMedian" -> "NT median",
    "normalMedian" -> "Normal median", "tumorFreq" -> "Tumor frequency(sample number)",
    "ntFreq" -> "NT frequency(sample number)", "normalFreq" -> "Normal frequency(sample number)",
    "tumorSpecificTypes" -> "Tumor specific types",
    "alternativeSplicingTypes" -> "Alternative splicing types", "annotation" -> "Annotation",
    "tumorAssociatedGene" -> "Tumor associated gene"
  )

  val types = List("ACC", "BLCA", "BRCA", "CESC", "CHOL", "COAD", "DLBC", "ESCA", "GBM",
    "HNSC", "KICH", "KIRC", "KIRP", "LAML", "LGG",
    "LIHC", "LUAD", "LUSC", "MESO",
    "OV", "PAAD", "PCPG", "PRAD", "READ", "SARC", "SKCM", "STAD", "TGCT", "THCA", "THYM", "UCEC", "UCS", "UVM"
  )

}
